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BioC 3.5: CHECK report for heatmaps on tokay2

This page was generated on 2017-08-16 13:26:57 -0400 (Wed, 16 Aug 2017).

Package 619/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
heatmaps 1.0.0
Malcolm Perry
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/heatmaps
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: heatmaps
Version: 1.0.0
Command: rm -rf heatmaps.buildbin-libdir heatmaps.Rcheck && mkdir heatmaps.buildbin-libdir heatmaps.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=heatmaps.buildbin-libdir heatmaps_1.0.0.tar.gz >heatmaps.Rcheck\00install.out 2>&1 && cp heatmaps.Rcheck\00install.out heatmaps-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=heatmaps.buildbin-libdir --install="check:heatmaps-install.out" --force-multiarch --no-vignettes --timings heatmaps_1.0.0.tar.gz
StartedAt: 2017-08-16 00:27:53 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 00:31:20 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 206.8 seconds
RetCode: 0
Status:  OK  
CheckDir: heatmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf heatmaps.buildbin-libdir heatmaps.Rcheck && mkdir heatmaps.buildbin-libdir heatmaps.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=heatmaps.buildbin-libdir heatmaps_1.0.0.tar.gz >heatmaps.Rcheck\00install.out 2>&1 && cp heatmaps.Rcheck\00install.out heatmaps-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=heatmaps.buildbin-libdir --install="check:heatmaps-install.out" --force-multiarch --no-vignettes --timings heatmaps_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/heatmaps.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'heatmaps/DESCRIPTION' ... OK
* this is package 'heatmaps' version '1.0.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'heatmaps' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  9.4Mb
  sub-directories of 1Mb or more:
    doc       2.1Mb
    extdata   6.9Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
makeGaussian2D: no visible binding for global variable 'dnorm'
Undefined global functions or variables:
  dnorm
Consider adding
  importFrom("stats", "dnorm")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'rtracklayer'
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/heatmaps.Rcheck/00check.log'
for details.


heatmaps.Rcheck/00install.out:


install for i386

* installing *source* package 'heatmaps' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for 'scale' in package 'heatmaps'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'heatmaps' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'heatmaps' as heatmaps_1.0.0.zip
* DONE (heatmaps)

heatmaps.Rcheck/examples_i386/heatmaps-Ex.timings:

nameusersystemelapsed
CoverageHeatmap0.250.030.28
Heatmap-class000
Heatmap0.020.000.01
PWMScanHeatmap0.030.000.03
PatternHeatmap0.080.020.10
coords000
default_color000
getScale000
heatmapOptions0.680.000.67
image0.010.000.02
label000
metadata000
nseq0.010.000.01
plotHeatmap0.030.020.05
plotHeatmapList0.130.030.15
plotHeatmapMeta0.050.000.05
plotPatternDensityMap0.570.010.59
plot_clusters0.060.000.06
plot_legend0.020.000.02
scale0.010.000.01
smoothHeatmap0.240.050.29
xm0.010.000.01
ym0.020.000.02

heatmaps.Rcheck/examples_x64/heatmaps-Ex.timings:

nameusersystemelapsed
CoverageHeatmap0.360.000.36
Heatmap-class000
Heatmap0.020.000.02
PWMScanHeatmap0.060.000.06
PatternHeatmap0.090.000.10
coords0.000.010.01
default_color000
getScale000
heatmapOptions0.660.000.66
image0.000.020.01
label0.010.000.02
metadata0.020.000.02
nseq000
plotHeatmap0.050.000.05
plotHeatmapList0.610.020.62
plotHeatmapMeta0.050.010.07
plotPatternDensityMap0.870.030.90
plot_clusters0.080.020.10
plot_legend0.030.000.03
scale0.020.000.01
smoothHeatmap0.040.000.05
xm0.020.000.02
ym000